RetrogeneDB ID: retro_ggor_1464

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 19:16213427..16214654(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: IPMK
• Ensembl ID: ENSGGOG00000008790
• Aliases: None
• Description: None

Sequence

>retro_ggor_1464
CCATCCCCGCTCCGGGTCGAGGCGCCGGGTCCCCCAGAAATGCGGACCCCACCGGCGATCGAGGCCACCCCTAAGGGCAC
CCTGCAGCCGGCAGGCGGCAGACTCCGCTTCCTCAATGGCTGTGTGCCCATCTTGCATCAGGTGGCCGGGCACAGGTATG
GGAAGGACAAAATGGGTATACTGCAACATCCAGACGGCACAGTTTTGAAACAGTTACAACCACCTCCAAGGGGCCCAAGA
GAGCTGGAATTCTATAATATGGTTTATGCTGCTGACTGTACCGATGGTGTTCTTCTACAGCTACGACAATGTTTGCCAAA
ATATTATGGCATCTGGCCACCTCCCGCTGCCCCAAACGATTTATACCTAAAACTGGAAAATGTGACCCATAAATTTAATA
AGCCCTGTATAATGGATGTAAAGACAGGGCAAAAAAGCTATGATCCTTTTTGCCTCATCTGAGAAAATTCAGCAACAGGT
CTGCAAGGACCCATTAATGGAAGAGATTGGGTTCTTGGTGCTTGGCATGAGGGTTTATCTTGTTCATTCCCATAGCTATG
AGACACAAACCAACATTATGGAAGAAGCTTAACAAAAGAAGCTATAAAGGATGGAGTCTCCGGATTTTTTCATAATGGGT
ACTGCTTAATAAAAGATGCTGTTGCTGCCATTATTCAGAAGACTGAGAAAATTCTGCAGTGGTTTGAAAACCAGAAGCAG
CTTAACTTTTACGCAAGTTCATTACTGTTTGTTTAGGAAGGTTCATCTCAGCCAATCACTACAAAACTGAATGACAGAAA
TTTGGCAGAAAAGTTTTTGTCCAAAGGACAACTGTCAGACACAGAAGTACTAGAGTGCAATAATAACTTTCATGTATTAA
CTTCCACAGTGAATGGAAAAATAGAGGCTTCAGTAGGCAAAAGCTTGTCCAAGGTGTATGCTCATCACAGGAAAATGTAT
ACAAAAAAGTATCACAGTCAGACTTCATTGAAAGTTGAAAATCTGGAGCAAGACAATGGGTGGAAAAGCATGTCACAGGA
ACATTTAAATGGAAATGTACTTTCCCAGCTGGAAAAAATTGTCTACCATCTTCCCACTGGTTGCCAAGAGACTGCTGAAG
TGTGCATGATAGATTTGGCTCATATGTTCCTTAGCAACACAGTAGATAAGGGATATGTTTATGGGCTAAAGCATTTAATT
TCTGTACTTCGAAGTATTTTAGACAAT

Alignment

ORF - retro_ggor_1464 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.89 %
• Parental protein coverage: 98.8 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PSPLRVEAPGPPEMRTSPAIESTPEGTPQPAGGRLRFLNGCVPLSHQVAGHMYGKDKVGILQHPDGTVLK
          PSPLRVEAPGPPEMRT.PAIE.TP.GT.QPAGGRLRFLNGCVP..HQVAGH.YGKDK.GILQHPDGTVLK
Retrocopy PSPLRVEAPGPPEMRTPPAIEATPKGTLQPAGGRLRFLNGCVPILHQVAGHRYGKDKMGILQHPDGTVLK

Parental  QLQPPPRGPRELEFYNMVYAADCFDGVLLELRKYLPKYYGIWSPPTAPNDLYLKLEDVTHKFNKPCIMDV
          QLQPPPRGPRELEFYNMVYAADC.DGVLL.LR..LPKYYGIW.PP.APNDLYLKLE.VTHKFNKPCIMDV
Retrocopy QLQPPPRGPRELEFYNMVYAADCTDGVLLQLRQCLPKYYGIWPPPAAPNDLYLKLENVTHKFNKPCIMDV

Parental  KIGQKSYDPF-ASSEKIQQQVSKYPLMEEIGFLVLGMRVYHVHSDSYETQ-NQHYGRSLTKETIKDGVSR
          K.GQKSYDPF.ASSEKIQQQV.K.PLMEEIGFLVLGMRVY.VHS.SYETQ.NQHYGRSLTKE.IKDGVS.
Retrocopy KTGQKSYDPF>ASSEKIQQQVCKDPLMEEIGFLVLGMRVYLVHSHSYETQ<NQHYGRSLTKEAIKDGVSG

Parental  FFHNGYCLRKDAIAASIQKIEKILQWFENQKQLNFYASSLLFVYEGSSQPTTTKLNDRTLAEKFLSKGQL
          FFHNGYCL.KDA.AA.IQK.EKILQWFENQKQLNFYASSLLFV.EGSSQP.TTKLNDR.LAEKFLSKGQL
Retrocopy FFHNGYCLIKDAVAAIIQKTEKILQWFENQKQLNFYASSLLFV*EGSSQPITTKLNDRNLAEKFLSKGQL

Parental  SDTEVLEYNNNFHVLSSTANGKIESSVGKSLSKMYARHRKIYTKKHHSQTSLKVENLEQDNGWKSMSQEH
          SDTEVLE.NNNFHVL.ST.NGKIE.SVGKSLSK.YA.HRK.YTKK.HSQTSLKVENLEQDNGWKSMSQEH
Retrocopy SDTEVLECNNNFHVLTSTVNGKIEASVGKSLSKVYAHHRKMYTKKYHSQTSLKVENLEQDNGWKSMSQEH

Parental  LNGNVLSQLEKVFYHLPTGCQEIAEVEVRMIDFAHVFPSNTIDEGYVYGLKHLISVLRSILDN
          LNGNVLSQLEK..YHLPTGCQE.A..EV.MID.AH.F.SNT.D.GYVYGLKHLISVLRSILDN
Retrocopy LNGNVLSQLEKIVYHLPTGCQETA--EVCMIDLAHMFLSNTVDKGYVYGLKHLISVLRSILDN

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.00 RPM	1.25 RPM
SRP007412_cerebellum	0.04 RPM	1.62 RPM
SRP007412_heart	0.00 RPM	0.09 RPM
SRP007412_kidney	0.00 RPM	2.13 RPM
SRP007412_liver	0.03 RPM	1.11 RPM
SRP007412_testis	0.00 RPM	4.66 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_1464 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1464 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Anas platyrhynchos	ENSAPLG00000011011	1 retrocopy	retro_apla_14,
Cavia porcellus	ENSCPOG00000000222	1 retrocopy	retro_cpor_369,
Erinaceus europaeus	ENSEEUG00000009958	1 retrocopy	retro_eeur_110,
Homo sapiens	ENSG00000151151	2 retrocopies	retro_hsap_1244, retro_hsap_2032,
Gorilla gorilla	ENSGGOG00000008790	1 retrocopy	retro_ggor_1464 ,
Myotis lucifugus	ENSMLUG00000015030	1 retrocopy	retro_mluc_518,
Nomascus leucogenys	ENSNLEG00000012319	2 retrocopies	retro_nleu_2419, retro_nleu_2622,
Pongo abelii	ENSPPYG00000002433	3 retrocopies	retro_pabe_1035, retro_pabe_1086, retro_pabe_1689,
Pan troglodytes	ENSPTRG00000002516	2 retrocopies	retro_ptro_1351, retro_ptro_855,